RPS-BLAST 2.2.26 [Sep-21-2011]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

Searching..................................................done

Query= psy13118
         (286 letters)



>d1vqoc1 c.22.1.1 (C:1-246) Ribosomal protein L4 {Archaeon
           Haloarcula marismortui [TaxId: 2238]}
          Length = 246

 Score =  107 bits (269), Expect = 1e-28
 Identities = 40/135 (29%), Positives = 64/135 (47%), Gaps = 8/135 (5%)

Query: 23  ITVYSEKNEPTGQTVTLPSVFKAPIRPDVVNFVHQNLSKNHRQPYAVSKDAGHQTSAESW 82
            T+Y       G  V LP VF+ P+R D++    +    N +Q Y   + AG +T AES+
Sbjct: 3   ATIYDLDGNTDG-EVDLPDVFETPVRSDLIGKAVRAAQANRKQDYGSDEYAGLRTPAESF 61

Query: 83  GTGRAVARIPRVRGGGTHRSGQGAFGNMCRAGRMFAPTRIWRRWHRKVNVNQRRYAMVSA 142
           G+GR  A +P++ G                 GR   P +  +     +N  +R+ A+ SA
Sbjct: 62  GSGRGQAHVPKLDGRARRV-------PQAVKGRSAHPPKTEKDRSLDLNDKERQLAVRSA 114

Query: 143 IAASSVPALVMSKGH 157
           +AA++   LV  +GH
Sbjct: 115 LAATADADLVADRGH 129



 Score = 86.3 bits (213), Expect = 1e-20
 Identities = 35/134 (26%), Positives = 60/134 (44%), Gaps = 8/134 (5%)

Query: 150 ALVMSKGHQTSAESWGTGRAVARIPRVRGGGTHRSGQGAFGNMCRAGRMFAPTRIWRRWH 209
                 G +T AES+G+GR  A +P++ G                 GR   P +  +   
Sbjct: 47  GSDEYAGLRTPAESFGSGRGQAHVPKLDGRARRV-------PQAVKGRSAHPPKTEKDRS 99

Query: 210 RKVNVNQRRYAMVSAIAASSVPALVMSKGHMIQDVPEFPLVVSDKIQEYKKTKQATIFLH 269
             +N  +R+ A+ SA+AA++   LV  +GH      E P+VVSD  ++  KT++    L 
Sbjct: 100 LDLNDKERQLAVRSALAATADADLVADRGHEFDR-DEVPVVVSDDFEDLVKTQEVVSLLE 158

Query: 270 RIKAWNDVLKVQSS 283
            +    D+ +   +
Sbjct: 159 ALDVHADIDRADET 172


>d1dmga_ c.22.1.1 (A:) Ribosomal protein L4 {Thermotoga maritima
           [TaxId: 2336]}
          Length = 225

 Score = 57.5 bits (138), Expect = 2e-10
 Identities = 28/123 (22%), Positives = 43/123 (34%), Gaps = 10/123 (8%)

Query: 23  ITVYSEKNEPTGQTVTLPSVFKAPIRPDVVNFVHQNLSKNHRQPYAVSKDAGHQTSAESW 82
           + + + K E  G       VF      DV+         N R   A +K     T  E  
Sbjct: 3   VDLLNVKGEKVGTLEISDFVFNIDPNYDVMWRYVDMQLSNRRAGTASTK-----TRGEVS 57

Query: 83  GTGRAVARIPRVRGGGTHRSGQGAFGNMCRAGRMFAPTRIWRRWHRKVNVNQRRYAMVSA 142
           G GR   +    +  G  R G          G +  P    R W +K+N   ++ A+ SA
Sbjct: 58  GGGR---KPWPQKHTGRARHGSIRSPIWRHGGVVHGPKP--RDWSKKLNKKMKKLALRSA 112

Query: 143 IAA 145
           ++ 
Sbjct: 113 LSV 115


>d2j01f1 c.22.1.1 (F:1-208) Ribosomal protein L4 {Thermus
           thermophilus [TaxId: 274]}
          Length = 208

 Score = 49.8 bits (118), Expect = 6e-08
 Identities = 25/122 (20%), Positives = 41/122 (33%), Gaps = 10/122 (8%)

Query: 21  PLITVYS-EKNEPTGQTVTLPSVFKAPIRPDVVNFVHQNLSKNHRQPYAVSKDAGHQTSA 79
             + VY      P+G+   L +   A I P ++  V +      R+       A  +T  
Sbjct: 2   KEVAVYQIPVLSPSGR-RELAADLPAEINPHLLWEVVRWQLAKRRRGT-----ASTKTRG 55

Query: 80  ESWGTGRAVARIPRVRGGGTHRSGQGAFGNMCRAGRMFAPTRIWRRWHRKVNVNQRRYAM 139
           E   +GR   +I   +  G  R G          G +F P      +     V ++  AM
Sbjct: 56  EVAYSGR---KIWPQKHTGRARHGDIGAPIFVGGGVVFGPKPRDYSYTLPKKVRKKGLAM 112

Query: 140 VS 141
             
Sbjct: 113 AV 114


>d2gycc1 c.22.1.1 (C:1-198) Ribosomal protein L4 {Escherichia coli
           [TaxId: 562]}
          Length = 198

 Score = 37.7 bits (87), Expect = 7e-04
 Identities = 27/112 (24%), Positives = 40/112 (35%), Gaps = 11/112 (9%)

Query: 33  TGQTVTLP-SVFKAPIRPDVVNFVHQNLSKNHRQPYAVSKDAGHQTSAESWGTGRAVARI 91
               +T+  + F       +V+ V    +   RQ     K     T AE  G+G+   R 
Sbjct: 8   AQSALTVSETTFGRDFNEALVHQVVVAYAAGARQGTRAQK-----TRAEVTGSGKKPWRQ 62

Query: 92  PRVRGGGTHRSGQGAFGNMCRAGRMFAPTRIWRRWHRKVNVNQRRYAMVSAI 143
              +G G  RSG          G  FA     +   +KVN    R A+ S +
Sbjct: 63  ---KGTGRARSGSIKSPIWRSGGVTFAARP--QDHSQKVNKKMYRGALKSIL 109


>d2sici_ d.84.1.1 (I:) Subtilisin inhibitor {Streptomyces
           albogriseolus, s-3253 [TaxId: 1887]}
          Length = 107

 Score = 26.7 bits (59), Expect = 1.5
 Identities = 14/52 (26%), Positives = 20/52 (38%)

Query: 150 ALVMSKGHQTSAESWGTGRAVARIPRVRGGGTHRSGQGAFGNMCRAGRMFAP 201
           ALV++ G   SA +    RAV         GTH +   A  ++   G     
Sbjct: 5   ALVLTVGKGVSATTAAPERAVTLTCAPGPSGTHPAAGSACADLAAVGGDLNA 56


>d1hdma1 b.1.1.2 (A:94-196) Class II MHC alpha chain, C-terminal
          domain {Human (Homo sapiens), HLA-DM [TaxId: 9606]}
          Length = 103

 Score = 24.6 bits (53), Expect = 8.5
 Identities = 6/21 (28%), Positives = 10/21 (47%)

Query: 19 ARPLITVYSEKNEPTGQTVTL 39
            P+  V++ K    G+  TL
Sbjct: 3  GFPIAEVFTLKPLEFGKPNTL 23


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.322    0.132    0.413 

Gapped
Lambda     K      H
   0.267   0.0624    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,052,686
Number of extensions: 46103
Number of successful extensions: 107
Number of sequences better than 10.0: 1
Number of HSP's gapped: 103
Number of HSP's successfully gapped: 8
Length of query: 286
Length of database: 2,407,596
Length adjustment: 84
Effective length of query: 202
Effective length of database: 1,254,276
Effective search space: 253363752
Effective search space used: 253363752
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.0 bits)